recipe bioconductor-netdx

Network-based patient classifier

Homepage:

https://bioconductor.org/packages/3.16/bioc/html/netDx.html

License:

MIT + file LICENSE

Recipe:

/bioconductor-netdx/meta.yaml

netDx is a general-purpose algorithm to build a patient classifier from heterogenous patient data. The method converts data into patient similarity networks at the level of features. Feature selection identifies features of predictive value to each class. Methods are provided for versatile predictor design and performance evaluation using standard measures. netDx natively groups molecular data into pathway-level features and connects with Cytoscape for network visualization of pathway themes. For method details see: Pai et al. (2019). netDx: interpretable patient classification using integrated patient similarity networks. Molecular Systems Biology. 15, e8497

package bioconductor-netdx

Versions:

1.9.0-0,  1.6.0-0,  1.4.0-0,  1.2.2-0,  1.2.0-0,  1.0.0-0

Depends:

• bioconductor-biocfilecache >=2.6.0,<2.7.0

• bioconductor-genomeinfodb >=1.34.0,<1.35.0

• bioconductor-genomicranges >=1.50.0,<1.51.0

• bioconductor-iranges >=2.32.0,<2.33.0

• bioconductor-multiassayexperiment >=1.24.0,<1.25.0

• bioconductor-s4vectors >=0.36.0,<0.37.0

• r-base >=4.2,<4.3.0a0

• r-bigmemory

• r-combinat

• r-doparallel

• r-foreach

• r-ggplot2

• r-glmnet

• r-httr

• r-igraph

• r-plotrix

• r-pracma

• r-rappdirs

• r-rcolorbrewer

• r-reshape2

• r-rocr

• r-rtsne

Required By:

Installation

With an activated Bioconda channel (see set-up-channels), install with:

conda install bioconductor-netdx

and update with:

conda update bioconductor-netdx

or use the docker container:

docker pull quay.io/biocontainers/bioconductor-netdx:<tag>

(see bioconductor-netdx/tags for valid values for <tag>)

Download stats

Link to this page

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